Bracken | Bayesian Reestimation of Abundance with KrakEN | Genomics library

by jenniferlu717 Python Version: v2.8 License: GPL-3.0

X-Ray Key Features Code Snippets Community Discussions(3)Vulnerabilities Install Support

kandi X-RAY | Bracken Summary

Bracken is a Python library typically used in Artificial Intelligence, Genomics applications. Bracken has no bugs, it has no vulnerabilities, it has a Strong Copyleft License and it has low support. However Bracken build file is not available. You can download it from GitHub.

For Bracken news, updates, and instructions: Bracken's peer-reviewed paper (published Jan 2, 2017):

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Quality

Security

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Support

Bracken has a low active ecosystem.

It has 194 star(s) with 43 fork(s). There are 12 watchers for this library.

It had no major release in the last 12 months.

There are 86 open issues and 103 have been closed. On average issues are closed in 30 days. There are 9 open pull requests and 0 closed requests.

It has a neutral sentiment in the developer community.

The latest version of Bracken is v2.8

Quality

Bracken has no bugs reported.

Security

Bracken has no vulnerabilities reported, and its dependent libraries have no vulnerabilities reported.

License

Bracken is licensed under the GPL-3.0 License. This license is Strong Copyleft.

Strong Copyleft licenses enforce sharing, and you can use them when creating open source projects.

Reuse

Bracken releases are available to install and integrate.

Bracken has no build file. You will be need to create the build yourself to build the component from source.

Installation instructions, examples and code snippets are available.

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Bracken Key Features

No Key Features are available at this moment for Bracken.

Bracken Examples and Code Snippets

No Code Snippets are available at this moment for Bracken.

Community Discussions

Trending Discussions on Bracken

Why does a link not take the of a contained as it's accessible name?

dplyr group_by multiple function arguments via Non Standard Evaluation

plot histogram matplotlib with labels on x axis instead of count

QUESTION

Why does a link not take the of a contained as it's accessible name?

Asked 2020-Aug-03 at 07:09

The way to provide an accessible name for an element is via its alt attribute. Similarly, the way to provide an acessible name for an element is via its </code> element. If I have an <code>img</code> tag within an <code>a</code> tag, the accessible name of the link is the accessible name of the <code>img</code>. However, if I have an <code>svg</code> within an <code>a</code> tag, the link has has no accessible name even if the <code>svg</code> does. Why is this? This is apparent within both Lighthouse audits and also the Accessibility tab of Firefox dev tools. <pre><code><a href="/fern"> <img src="/bracken" alt="Bracken" /> </a> </code></pre> <a href="https://i.stack.imgur.com/VUzEk.png" rel="nofollow noreferrer"><img src="https://i.stack.imgur.com/VUzEk.png" alt="Using an img" /></a> <pre><code><a href="/fern"> <svg role="img" viewBox="0 0 100 100"> <title>Bracken

I could add an aria-label to the link, but that seems like duplication.

...

ANSWER

Answered 2020-Aug-03 at 07:09

Short Answer

Visually hidden text is still the most robust way to ensure link text is read out.

There are other ways of doing this that are neater such as using the alt attribute on an external image or aria-labelledby on an inline SVG so I have included those in the answer below.

Long Answer

Most modern screen readers will not have a problem with this (NVDA and JAWS both read the title text in my quick test) but some older ones (including old versions of NVDA, JAWs etc.) will not work.

I believe that the comment that "desc" is the equivalent of "alt" is not correct as I explained in this answer on title vs description on SVG (the first three lines are relevant).

To further expand on this here is what the W3C says about SVGs in the proposed spec update:-

The ‘title’ child element represents a short text alternative for the element.

On a link, this could be the title or a description of the target resource; on an image or drawing object, it could be a short description of the graphic; on interactive content, it could be a label for, or instructions for, use of the element; and so forth.

source: https://www.w3.org/TR/SVG2/struct.html#TitleElement

The ‘desc’ element represents more detailed textual information for the element such as a description. This is typically exposed to assistive technologies to provide more detailed information, such as a description of the visual appearance of a graphic or help to explain the functionality of a complex widget. It is not typically available to other users, so should not be used for essential instructions.

source: https://www.w3.org/TR/SVG2/struct.html#DescElement

External SVGs

For external SVG files the recommended way to ensure text is read is to use alt tags. This may mean slight duplication but alt attributes work back to ie4!

Keep your title attribute as if someone accesses the image directly they will still get some description of what the image contains.

Inline SVGs

For this you should give your title an ID. Then add aria-labelledby to the surrounding link. As stated in the question I linked you can also give the an ID and link both of them if you wish.

The downside is that aria-labelledby is not as well supported as you might think, but it is perfectly valid and passes WCAG recommendations.

Source https://stackoverflow.com/questions/63208144

QUESTION

dplyr group_by multiple function arguments via Non Standard Evaluation

Asked 2019-Dec-25 at 14:46

I was reading dplyr's vignette trying to figure out how to use dplyr in my function codes. Mid way through it talks about how to use enquos on ... in order to pass multiple arguments to group_by.

a short example of how it would work

...

ANSWER

Answered 2019-Dec-25 at 05:59

If we use group_by_at, we may not need the if/else argument

Source https://stackoverflow.com/questions/59474925

QUESTION

plot histogram matplotlib with labels on x axis instead of count

Asked 2018-Feb-15 at 03:01

I'm looking to plot a histogram using value_counts() or some equivalent, in python. My data looks like:

...

ANSWER

Answered 2018-Feb-15 at 02:49

Figured it out.

Source https://stackoverflow.com/questions/48799185

Community Discussions, Code Snippets contain sources that include Stack Exchange Network

Vulnerabilities

No vulnerabilities reported

Install Bracken

Bracken is a companion program to Kraken 1 or Kraken 2 While Kraken classifies reads to multiple levels in the taxonomic tree, Bracken allows estimation of abundance at a single level using those classifications (e.g. Bracken can estimate abundance of species within a sample). Prior to installing Bracken, please install Kraken: Kraken can be downloaded from here: http://ccb.jhu.edu/software/kraken/.
${KRAKEN_DB} is the path to a built Kraken database which also must contain: the taxonomy/nodes.dmp file and library sequences *.fna, *.fa, or *.fasta in the library directory.
${KRAKEN_DB} is the path to a built Kraken database which also must contain: the taxonomy/nodes.dmp file and library sequences *.fna, *.fa, or *.fasta in the library directory.

Support

For any new features, suggestions and bugs create an issue on GitHub. If you have any questions check and ask questions on community page Stack Overflow .

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